Molecular tumour boards—current and future considerations for precision oncology

AM Tsimberidou, M Kahle, HH Vo, MA Baysal… - Nature Reviews …, 2023 - nature.com
Over the past 15 years, rapid progress has been made in developmental therapeutics,
especially regarding the use of matched targeted therapies against specific oncogenic …

Unveiling the Digital Evolution of Molecular Tumor Boards

S Lutz, A D'Angelo, S Hammerl, M Schmutz, R Claus… - Targeted Oncology, 2024 - Springer
Molecular tumor boards (MTB) are interdisciplinary conferences involving various experts
discussing patients with advanced tumors, to derive individualized treatment suggestions …

PanDrugs2: prioritizing cancer therapies using integrated individual multi-omics data

MJ Jiménez-Santos… - Nucleic Acids …, 2023 - academic.oup.com
Genomics studies routinely confront researchers with long lists of tumor alterations detected
in patients. Such lists are difficult to interpret since only a minority of the alterations are …

Smart variant filtering-A blueprint solution for massively parallel sequencing-based variant analysis

O Brahimllari, S Eloranta… - Health informatics …, 2024 - journals.sagepub.com
Massively parallel sequencing helps create new knowledge on genes, variants and their
association with disease phenotype. This important technological advancement …

SeqCAT: Sequence Conversion and Analysis Toolbox

K Kornrumpf, NS Kurz, K Drofenik, L Krauß… - Nucleic Acids …, 2024 - academic.oup.com
Dealing with sequence coordinates in different formats and reference genomes is
challenging in genetic research. This complexity arises from the need to convert and …

Advancing Personalized Cancer Therapy: Onko_DrugCombScreen-A Novel Shiny App for Precision Drug Combination Screening

J Yang, M Wang, J Doenitz, B Chapuy, T Beissbarth - medRxiv, 2024 - medrxiv.org
The employment of drug combinations in cancer therapy plays an important role, enhancing
efficacy and reducing toxicity. However, the ability to identify and validate effective drug …

Precise interpretation and prioritization of sequence variants with Onkopus for supporting molecular tumor boards

NS Kurz, K Kornrumpf, T Tucholski, K Drofenik, A König… - medRxiv, 2024 - medrxiv.org
One of the major challenges in precision medicine is the identification of pathogenic,
actionable variants and the selection of personalized treatments. We present Onkopus, a …

Onkopipe: A Snakemake Based DNA-Sequencing Pipeline for Clinical Variant Analysis in Precision Medicine

J Yang, T Beißbarth, J Dönitz - German Medical Data Sciences …, 2023 - ebooks.iospress.nl
NGS is increasingly used in precision medicine, but an automated sequencing pipeline that
can detect different types of variants (single nucleotide-SNV, copy number-CNV, structural …

[PDF][PDF] Deciphering BRCAness Phenotype in Cancer: A Graph Convolutional Neural Network Approach with Layer-wise Relevance Propagation Analysis

J Yang, H Chereda, J Dönitz… - An automated data …, 2024 - ediss.uni-goettingen.de
Background: Cancer variability among patients underscores the need for personalized
therapy based on genomic understanding. BRCAness, characterized by vulnerabilities …

Discovery of molecularly-informed therapeutic strategies for mature T-cell neoplasms

R Koch, N Schmidt, K Kornrumpf, L Ries, K Markus… - 2024 - researchsquare.com
Mature T-cell lymphomas and leukemias (mTCL) comprise a clinically and genetically
heterogeneous group of lymphoid malignancies. Most subtypes of peripheral T-cell …